Cargando…

How can a high-quality genome assembly help plant breeders?

The decreasing costs of next-generation sequencing and the improvements in de novo sequence assemblers have made it possible to obtain reference genomes for most eukaryotes, including minor crops such as the blueberry (Vaccinium corymbosum). Nevertheless, these genomes are at various levels of compl...

Descripción completa

Detalles Bibliográficos
Autores principales: Benevenuto, Juliana, Ferrão, Luís Felipe V, Amadeu, Rodrigo R, Munoz, Patricio
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6558523/
https://www.ncbi.nlm.nih.gov/pubmed/31184361
http://dx.doi.org/10.1093/gigascience/giz068
_version_ 1783425643688493056
author Benevenuto, Juliana
Ferrão, Luís Felipe V
Amadeu, Rodrigo R
Munoz, Patricio
author_facet Benevenuto, Juliana
Ferrão, Luís Felipe V
Amadeu, Rodrigo R
Munoz, Patricio
author_sort Benevenuto, Juliana
collection PubMed
description The decreasing costs of next-generation sequencing and the improvements in de novo sequence assemblers have made it possible to obtain reference genomes for most eukaryotes, including minor crops such as the blueberry (Vaccinium corymbosum). Nevertheless, these genomes are at various levels of completeness and few have been anchored to chromosome scale and/or are haplotype-phased. We highlight the impact of a high-quality genome assembly for plant breeding and genetic research by showing how it affects our understanding of the genetic architecture of important traits and aids marker selection and candidate gene detection. We compared the results of genome-wide association studies and genomic selection that were already published using a blueberry draft genome as reference with the results using the recent released chromosome-scale and haplotype-phased blueberry genome. We believe that the benefits shown herein reinforce the importance of genome assembly projects for other non-model species.
format Online
Article
Text
id pubmed-6558523
institution National Center for Biotechnology Information
language English
publishDate 2019
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-65585232019-06-17 How can a high-quality genome assembly help plant breeders? Benevenuto, Juliana Ferrão, Luís Felipe V Amadeu, Rodrigo R Munoz, Patricio Gigascience Commentary The decreasing costs of next-generation sequencing and the improvements in de novo sequence assemblers have made it possible to obtain reference genomes for most eukaryotes, including minor crops such as the blueberry (Vaccinium corymbosum). Nevertheless, these genomes are at various levels of completeness and few have been anchored to chromosome scale and/or are haplotype-phased. We highlight the impact of a high-quality genome assembly for plant breeding and genetic research by showing how it affects our understanding of the genetic architecture of important traits and aids marker selection and candidate gene detection. We compared the results of genome-wide association studies and genomic selection that were already published using a blueberry draft genome as reference with the results using the recent released chromosome-scale and haplotype-phased blueberry genome. We believe that the benefits shown herein reinforce the importance of genome assembly projects for other non-model species. Oxford University Press 2019-06-10 /pmc/articles/PMC6558523/ /pubmed/31184361 http://dx.doi.org/10.1093/gigascience/giz068 Text en © The Author(s) 2019. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Commentary
Benevenuto, Juliana
Ferrão, Luís Felipe V
Amadeu, Rodrigo R
Munoz, Patricio
How can a high-quality genome assembly help plant breeders?
title How can a high-quality genome assembly help plant breeders?
title_full How can a high-quality genome assembly help plant breeders?
title_fullStr How can a high-quality genome assembly help plant breeders?
title_full_unstemmed How can a high-quality genome assembly help plant breeders?
title_short How can a high-quality genome assembly help plant breeders?
title_sort how can a high-quality genome assembly help plant breeders?
topic Commentary
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6558523/
https://www.ncbi.nlm.nih.gov/pubmed/31184361
http://dx.doi.org/10.1093/gigascience/giz068
work_keys_str_mv AT benevenutojuliana howcanahighqualitygenomeassemblyhelpplantbreeders
AT ferraoluisfelipev howcanahighqualitygenomeassemblyhelpplantbreeders
AT amadeurodrigor howcanahighqualitygenomeassemblyhelpplantbreeders
AT munozpatricio howcanahighqualitygenomeassemblyhelpplantbreeders